VitaPad: visualization tools for the analysis of pathway data

Bioinformatics. 2005 Apr 15;21(8):1596-602. doi: 10.1093/bioinformatics/bti153. Epub 2004 Nov 25.

Abstract

Motivation: Packages that support the creation of pathway diagrams are limited by their inability to be readily extended to new classes of pathway-related data.

Results: VitaPad is a cross-platform application that enables users to create and modify biological pathway diagrams and incorporate microarray data with them. It improves on existing software in the following areas: (i) It can create diagrams dynamically through graph layout algorithms. (ii) It is open-source and uses an open XML format to store data, allowing for easy extension or integration with other tools. (iii) It features a cutting-edge user interface with intuitive controls, high-resolution graphics and fully customizable appearance.

Availability: http://bioinformatics.med.yale.edu

Contacts: matthew.holford@yale.edu; hongyu.zhao@yale.edu.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, U.S. Gov't, Non-P.H.S.
  • Research Support, U.S. Gov't, P.H.S.

MeSH terms

  • Algorithms*
  • Cell Physiological Phenomena*
  • Computer Graphics*
  • Computer Simulation
  • Database Management Systems
  • Databases, Factual
  • Documentation / methods
  • Gene Expression Regulation / physiology*
  • Information Storage and Retrieval / methods*
  • Models, Biological*
  • Signal Transduction / physiology*
  • User-Computer Interface*